1. Mods should be self contained. You should be able to put faction logos, faction pictures, new ship designs, new sounds, etc. into your mod subfolder.

2. I'd really like to be able to mod individual items in the xml rather than have to add the entire file to my mod. This way I can modify Biospheres without my mod conflicting with every other mod that wants to modify a single project in ImprovementDefs.xml.

3. It would be great if ship modules could be limited to a certain number rather than just 1 or infinite. That way I can limit the number of sensors on a ship to 3. Bonus points if the limit can optionally be scaled with hull size and if the limiting also applies to lower tier modules of the same type (e.g. only 3 "sensors" not just 3 Navigational Sensors + 3 Interstellar Sensors + 3 Subspace Sensors)

4. Similar to #3, I'd like the ability to limit colony projects to an arbitrary number.  This way I can make a project that is more powerful than normal but still won't be overpowered.